Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 20 of 135
Found at i:8173751 original size:30 final size:30
Alignment explanation
Indices: 8173715--8173784 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
8173705 TGAATTAGCA
* *
8173715 TGCGAACCCTGTATGTGCAAACCCTAGATG
1 TGCGAACCCTGTATGTGCAAACCCAACATG
**
8173745 TGCGAACCCTGTATGTGTGAACCCAACATG
1 TGCGAACCCTGTATGTGCAAACCCAACATG
8173775 TGCGAACCCT
1 TGCGAACCCT
8173785 TCTTGTGAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (30 bp):
TGCGAACCCTGTATGTGCAAACCCAACATG
Found at i:8173766 original size:15 final size:15
Alignment explanation
Indices: 8173715--8173784 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
8173705 TGAATTAGCA
8173715 TGCGAACCCTGTATG
1 TGCGAACCCTGTATG
*
8173730 TGCAAACCCTAG-ATG
1 TGCGAACCCT-GTATG
8173745 TGCGAACCCTGTATG
1 TGCGAACCCTGTATG
* ***
8173760 TGTGAACCCAACATG
1 TGCGAACCCTGTATG
8173775 TGCGAACCCT
1 TGCGAACCCT
8173785 TCTTGTGAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 1 0.02
15 43 0.96
16 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (15 bp):
TGCGAACCCTGTATG
Found at i:8187338 original size:22 final size:22
Alignment explanation
Indices: 8187313--8187356 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8187303 AATATTTATT
*
8187313 TTTA-TATCATAATAAATTAAAA
1 TTTATTAT-ATAATAAATAAAAA
*
8187335 TTTATTATATATTAAATAAAAA
1 TTTATTATATAATAAATAAAAA
8187357 ATAGAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTATTATATAATAAATAAAAA
Found at i:8188373 original size:20 final size:18
Alignment explanation
Indices: 8188323--8188373 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 18
8188313 TTATTCTAAG
8188323 TATTAAAAA-ATATTTTT
1 TATTAAAAATATATTTTT
8188340 TATTAATATTAATATATTTTT
1 TATTAA-A--AATATATTTTT
8188361 ATAATTAAAAATA
1 -T-ATTAAAAATA
8188374 AATATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 6 0.21
18 1 0.04
20 6 0.21
21 8 0.29
22 2 0.07
23 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAAAAATATATTTTT
Found at i:8193644 original size:1 final size:1
Alignment explanation
Indices: 8193638--8193663 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8193628 CTGACTTATG
8193638 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
8193664 GTGTGTGCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8207616 original size:42 final size:42
Alignment explanation
Indices: 8207532--8207618 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
8207522 ACAACTTAAG
** *
8207532 ACACGGCCGTGTGTATCAAGTCAGTGAGTTACACCGCTTAGC
1 ACACGGCCGTGTGTATCAAGTCAAAGAGTTACACAGCTTAGC
8207574 ACACGGCCGTGTGTCA-CAAGTCAAAGAGTTACACAG-TCTAGC
1 ACACGGCCGTGTGT-ATCAAGTCAAAGAGTTACACAGCT-TAGC
8207616 ACA
1 ACA
8207619 AAGCCTGCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 1 0.03
42 38 0.95
43 1 0.03
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (42 bp):
ACACGGCCGTGTGTATCAAGTCAAAGAGTTACACAGCTTAGC
Found at i:8210497 original size:19 final size:19
Alignment explanation
Indices: 8210452--8210499 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
8210442 ATTACCCCTG
*
8210452 TTTTCAAAATTTCTAACTT
1 TTTTCAAATTTTCTAACTT
**
8210471 TTCCCAAATTTTCTAA-TT
1 TTTTCAAATTTTCTAACTT
8210489 TGTTTCAAATT
1 T-TTTCAAATT
8210500 AGTCCCAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTCAAATTTTCTAACTT
Found at i:8221110 original size:20 final size:20
Alignment explanation
Indices: 8221069--8221110 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8221059 AATTAAGTTT
**
8221069 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATAGAAA
*
8221089 ATTTAAATTAAAAATAGAAA
1 ATTTAAAATAAAAATAGAAA
8221109 AT
1 AT
8221111 CATAATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTAAAATAAAAATAGAAA
Found at i:8221323 original size:22 final size:24
Alignment explanation
Indices: 8221280--8221326 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
8221270 TATTTAAATA
**
8221280 TTTAATATTATAATTTTTTATTTT
1 TTTAATATTATAATTTAATATTTT
8221304 TTTAAT-TTA-AATTTAATATTTT
1 TTTAATATTATAATTTAATATTTT
8221326 T
1 T
8221327 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTAATATTATAATTTAATATTTT
Found at i:8222219 original size:31 final size:31
Alignment explanation
Indices: 8222147--8222236 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 31
8222137 AAATGGATCT
*
8222147 AATCAAAATTTCATGTATAAAATT-ATA-TAG
1 AATCAAAATTT-ATGTATAATATTAATATTAG
8222177 AATCAAAATTTATGTATAATATTACATATTA-
1 AATCAAAATTTATGTATAATATTA-ATATTAG
* *
8222208 AATTAAAATTTATGTATAATTTTAATATT
1 AATCAAAATTTATGTATAATATTAATATT
8222237 TATCTTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
29 11 0.20
30 16 0.30
31 25 0.46
32 2 0.04
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (31 bp):
AATCAAAATTTATGTATAATATTAATATTAG
Found at i:8222785 original size:18 final size:18
Alignment explanation
Indices: 8222759--8222795 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8222749 TTATAATTTT
* *
8222759 TTATTTTTTTAATTTAAA
1 TTATGTTTTTAATGTAAA
8222777 TTATGTTTTTAATGTAAA
1 TTATGTTTTTAATGTAAA
8222795 T
1 T
8222796 AAACTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTATGTTTTTAATGTAAA
Found at i:8232145 original size:17 final size:17
Alignment explanation
Indices: 8232120--8232158 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
8232110 TCAGACTCTA
* *
8232120 GGTGAGTTTGGATGGGC
1 GGTGCGTTTGGATGGAC
8232137 GGTGCGTTTGGATGGAC
1 GGTGCGTTTGGATGGAC
8232154 GGTGC
1 GGTGC
8232159 ATTTACCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.51, T:0.28
Consensus pattern (17 bp):
GGTGCGTTTGGATGGAC
Found at i:8233176 original size:14 final size:14
Alignment explanation
Indices: 8233157--8233183 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8233147 TGTTTTGTGA
8233157 TTATTAGTATTAAC
1 TTATTAGTATTAAC
8233171 TTATTAGTATTAA
1 TTATTAGTATTAA
8233184 ACTGAGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
TTATTAGTATTAAC
Found at i:8241481 original size:3 final size:3
Alignment explanation
Indices: 8241475--8241523 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8241465 CTCCTCCTAC
8241475 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8241523 T
1 T
8241524 ACCTCAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:8248839 original size:28 final size:31
Alignment explanation
Indices: 8248779--8248839 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
8248769 TACAGATCGT
* *
8248779 ATTTGGGCCTACAATAATTTTTATTTTTGCA
1 ATTTGGGCCTACAATAATTTTTAGTTTTCCA
*
8248810 ATTTGGGCC-ATAA-AATTTTT-GTTTTCCA
1 ATTTGGGCCTACAATAATTTTTAGTTTTCCA
8248838 AT
1 AT
8248840 ATTAAGTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 7 0.26
30 3 0.11
31 9 0.33
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTTGGGCCTACAATAATTTTTAGTTTTCCA
Found at i:8252455 original size:2 final size:2
Alignment explanation
Indices: 8252448--8252481 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8252438 TAGTAATGGA
8252448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8252482 CCCGCCTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8254122 original size:77 final size:78
Alignment explanation
Indices: 8253994--8254151 Score: 309
Period size: 77 Copynumber: 2.0 Consensus size: 78
8253984 TAATATTTTG
8253994 CTTAAAATAATATTTTATAAGTAATATAATAATATATATAAAAAGAAAGGAAAAGATGAACAGAC
1 CTTAAAATAATATTTTATAAGTAATATAATAATATATATAAAAAGAAAGGAAAAGATGAACAGAC
8254059 TTTTATCATCTTT
66 TTTTATCATCTTT
8254072 CTTAAAATAATA-TTTATAAGTAATATAATAATATATATAAAAAGAAAGGAAAAGATGAACAGAC
1 CTTAAAATAATATTTTATAAGTAATATAATAATATATATAAAAAGAAAGGAAAAGATGAACAGAC
8254136 TTTTATCATCTTT
66 TTTTATCATCTTT
8254149 CTT
1 CTT
8254152 CTTCATATTG
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 68 0.85
78 12 0.15
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (78 bp):
CTTAAAATAATATTTTATAAGTAATATAATAATATATATAAAAAGAAAGGAAAAGATGAACAGAC
TTTTATCATCTTT
Found at i:8255217 original size:25 final size:25
Alignment explanation
Indices: 8255189--8255250 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
8255179 GTCCTTTTTC
*
8255189 ATTTTTTTTTGTTTTTCTTTTTAAA
1 ATTTTTTTTTGTTTTACTTTTTAAA
* * *
8255214 ATTTTTATTT-ATTTACTTTTTAAG
1 ATTTTTTTTTGTTTTACTTTTTAAA
*
8255238 TTTTTTTATTTGT
1 ATTTTTT-TTTGT
8255251 CCTTTATTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (25 bp):
ATTTTTTTTTGTTTTACTTTTTAAA
Found at i:8255218 original size:24 final size:22
Alignment explanation
Indices: 8255182--8255248 Score: 55
Period size: 24 Copynumber: 3.0 Consensus size: 22
8255172 ATTCTTTGTC
* * * *
8255182 CTTTTTCATTTTTTTTTGTTTTT
1 CTTTTTAAATTTTTTTT-ATTTA
8255205 CTTTTTAAAATTTTTATTTATTTA
1 CTTTTT-AAATTTTT-TTTATTTA
*
8255229 CTTTTT-AAGTTTTTTTATTT
1 CTTTTTAAATTTTTTTTATTT
8255249 GTCCTTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 7 0.19
22 6 0.16
23 6 0.16
24 15 0.41
25 3 0.08
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (22 bp):
CTTTTTAAATTTTTTTTATTTA
Found at i:8256258 original size:21 final size:20
Alignment explanation
Indices: 8256234--8256287 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
8256224 TGTCTTTTTT
*
8256234 TAAAAAAATATATTAAGAAAG
1 TAAAAAAATATATTAA-AAAA
**
8256255 TAAAAATTTATATTAAAAAA
1 TAAAAAAATATATTAAAAAA
8256275 TAAAAAAATATAT
1 TAAAAAAATATAT
8256288 ATTATAACAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAAAAATATATTAAAAAA
Found at i:8263512 original size:22 final size:22
Alignment explanation
Indices: 8263487--8263534 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
8263477 CCACCAAATA
*
8263487 AAATATTAATTTT-TAAAATTTT
1 AAATA-TAATTTTAAAAAATTTT
8263509 AAATATAATTTTAAAAAAATTTT
1 AAATATAATTTT-AAAAAATTTT
8263532 AAA
1 AAA
8263535 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 5 0.22
23 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATATAATTTTAAAAAATTTT
Found at i:8263520 original size:12 final size:11
Alignment explanation
Indices: 8263501--8263535 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8263491 ATTAATTTTT
8263501 AAAATTTTAAA
1 AAAATTTTAAA
*
8263512 TATAATTTTAAA
1 -AAAATTTTAAA
8263524 AAAATTTTAAA
1 AAAATTTTAAA
8263535 A
1 A
8263536 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:8263549 original size:32 final size:32
Alignment explanation
Indices: 8263497--8263563 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
8263487 AAATATTAAT
* *
8263497 TTTTAAAATTTTAAATATAATTTTA-AAAAAA
1 TTTTAAAATTTTAAAAATAATATTATAAAAAA
*
8263528 TTTTAAAATTTTAAAAAATAATATTATAAAACA
1 TTTTAAAATTTT-AAAAATAATATTATAAAAAA
8263561 TTT
1 TTT
8263564 CAAATACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 12 0.39
32 11 0.35
33 8 0.26
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (32 bp):
TTTTAAAATTTTAAAAATAATATTATAAAAAA
Found at i:8263613 original size:24 final size:24
Alignment explanation
Indices: 8263585--8263632 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8263575 TTCAAATTTT
*
8263585 ATAAAATCAATAATA-AACAAATAA
1 ATAAAATAAATAA-AGAACAAATAA
8263609 ATAAAATAAATAAAGAACAAATAA
1 ATAAAATAAATAAAGAACAAATAA
8263633 GAATATCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (24 bp):
ATAAAATAAATAAAGAACAAATAA
Found at i:8265685 original size:18 final size:19
Alignment explanation
Indices: 8265653--8265688 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8265643 ACAGTTTGGT
8265653 TTGAACTTTGATTTGACTC
1 TTGAACTTTGATTTGACTC
*
8265672 TTGAA-TTTGGTTTGACT
1 TTGAACTTTGATTTGACT
8265689 TCTCTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.50
Consensus pattern (19 bp):
TTGAACTTTGATTTGACTC
Found at i:8268330 original size:11 final size:11
Alignment explanation
Indices: 8268298--8268330 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
8268288 CTCCTGGATC
8268298 AAAA-AAATTA
1 AAAATAAATTA
8268308 AAAATAAA-TA
1 AAAATAAATTA
8268318 AAAATAAATTA
1 AAAATAAATTA
8268329 AA
1 AA
8268331 GAAACAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAATTA
Found at i:8274503 original size:13 final size:13
Alignment explanation
Indices: 8274485--8274511 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8274475 TTTTGGACGA
8274485 AAAAATATTTTAT
1 AAAAATATTTTAT
8274498 AAAAATATTTTAT
1 AAAAATATTTTAT
8274511 A
1 A
8274512 GTTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATATTTTAT
Found at i:8274530 original size:5 final size:6
Alignment explanation
Indices: 8274514--8274538 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8274504 ATTTTATAGT
8274514 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
8274539 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:8281190 original size:43 final size:42
Alignment explanation
Indices: 8281138--8281332 Score: 191
Period size: 43 Copynumber: 4.6 Consensus size: 42
8281128 CAGTGATATG
* * *
8281138 GGGAATCAGCACATAGCAACCCCTTTCACAATTAAGGATTCGA
1 GGGAATCAGCACTTAGCAACCCCTTT-ACAATTAAGAATACGA
* * * *
8281181 TGGAATCAGCACTTAGCAACCACCTTTA-TATTCAGTGATACG-
1 GGGAATCAGCACTTAGCAACC-CCTTTACAATTAAG-AATACGA
* *
8281223 GGGAATCAGCACTTAGCAACCCCTTTCACAATAAAAAATACGA
1 GGGAATCAGCACTTAGCAACCCCTTT-ACAATTAAGAATACGA
* * * * *
8281266 TGGG-ATCAGCACTTAGCAACCCCTTTAGAGTCAATAATTC-A
1 -GGGAATCAGCACTTAGCAACCCCTTTACAATTAAGAATACGA
8281307 GGGAATCAGCACTTAGCAACCCCTTT
1 GGGAATCAGCACTTAGCAACCCCTTT
8281333 TTATTCAGTA
Statistics
Matches: 129, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
40 3 0.02
41 28 0.22
42 40 0.31
43 50 0.39
44 8 0.06
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
GGGAATCAGCACTTAGCAACCCCTTTACAATTAAGAATACGA
Found at i:8281244 original size:85 final size:85
Alignment explanation
Indices: 8281097--8281332 Score: 314
Period size: 85 Copynumber: 2.8 Consensus size: 85
8281087 CGTTACTCGG
* * * *
8281097 TGGATTCAGCACTTAGCAACCACC-ATAAATTCAGTGATATGGGGAATCAGCACATAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAACCCC
* ** *
8281161 TTTCACAATTAAGGATTCGA
66 TTTCACAATAAAAAATACGA
*
8281181 TGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAACCCC
8281246 TTTCACAATAAAAAATACGA
66 TTTCACAATAAAAAATACGA
* * * * * * *
8281266 TGGGATCAGCACTTAGCAACC-CCTTTAGAGTCAATAATTCAGGGAATCAGCACTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAACCCC
8281330 TTT
66 TTT
8281333 TTATTCAGTA
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
84 63 0.47
85 72 0.53
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (85 bp):
TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACTTAGCAACCCC
TTTCACAATAAAAAATACGA
Found at i:8287257 original size:18 final size:18
Alignment explanation
Indices: 8287234--8287270 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8287224 TCAGAAATCA
*
8287234 TCACACTATTACAATATT
1 TCACACTATCACAATATT
8287252 TCACACTATCACAATATT
1 TCACACTATCACAATATT
8287270 T
1 T
8287271 TTATGGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (18 bp):
TCACACTATCACAATATT
Found at i:8288733 original size:41 final size:41
Alignment explanation
Indices: 8288667--8288773 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 41
8288657 TATTCGTTAC
*
8288667 TCGGTGGATTCAGCACTTAGCAACCACC-ATAAATTCAGTGA
1 TCGG-GGAATCAGCACTTAGCAACCACCTATAAATTCAGTGA
* * *
8288708 TATGGGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGA
1 T-CGGGGAATCAGCACTTAGCAACCACCTATAAATTCAGTGA
8288750 TCGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
8288774 CCTTTCACAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 45 0.76
42 14 0.24
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
TCGGGGAATCAGCACTTAGCAACCACCTATAAATTCAGTGA
Found at i:8288862 original size:41 final size:41
Alignment explanation
Indices: 8288712--8288862 Score: 144
Period size: 41 Copynumber: 3.6 Consensus size: 41
8288702 CAGTGATATG
* * * * *
8288712 GGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGA-TCG
1 GGGAATCAGCACTTAGCAACC-CCTTTACAATCAATAATTCA
* * *
8288753 GGGAATCAGCACTTAGCAACCCCTTTCACAATAAAAAATACGA
1 GGGAATCAGCACTTAGCAACCCCTTT-ACAATCAATAATTC-A
* * *
8288796 TTGG-ATCAGCACTTAGCAACCCCTTTAGAGTCAATAATTCA
1 -GGGAATCAGCACTTAGCAACCCCTTTACAATCAATAATTCA
*
8288837 GGGAATCAACACTTAGCAACCCCTTT
1 GGGAATCAGCACTTAGCAACCCCTTT
8288863 TTATTTAGTA
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
40 7 0.08
41 48 0.54
42 10 0.11
43 22 0.25
44 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (41 bp):
GGGAATCAGCACTTAGCAACCCCTTTACAATCAATAATTCA
Found at i:8290267 original size:24 final size:23
Alignment explanation
Indices: 8290233--8290310 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 23
8290223 CTAATCGAGG
8290233 AGCTCCGAAGAGCTATTAACGGGA
1 AGCT-CGAAGAGCTATTAACGGGA
*
8290257 AGCTCGCAAGAACTATTTAACGGGA
1 AGCTCG-AAGAGCTA-TTAACGGGA
* *
8290282 AGCTCGAGAGCGCTAATAACGGGA
1 AGCTCGA-AGAGCTATTAACGGGA
*
8290306 CGCTC
1 AGCTC
8290311 TTTCGAGCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
23 2 0.04
24 24 0.52
25 20 0.43
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (23 bp):
AGCTCGAAGAGCTATTAACGGGA
Found at i:8290282 original size:25 final size:24
Alignment explanation
Indices: 8290240--8290287 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
8290230 AGGAGCTCCG
*
8290240 AAGAGCTATTAACGGGAAGCTCGC
1 AAGAACTATTAACGGGAAGCTCGC
8290264 AAGAACTATTTAACGGGAAGCTCG
1 AAGAACTA-TTAACGGGAAGCTCG
8290288 AGAGCGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (24 bp):
AAGAACTATTAACGGGAAGCTCGC
Found at i:8293296 original size:59 final size:59
Alignment explanation
Indices: 8293224--8293342 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
8293214 AAACATGAAT
8293224 TAACATCCCGAAAATATTAAAACAAGAGATAAGCACACATAACTGAGAATAACAATCAA
1 TAACATCCCGAAAATATTAAAACAAGAGATAAGCACACATAACTGAGAATAACAATCAA
8293283 TAACATCCCGAAAATATTAAAACAAGAGATAAGCACACATAACTGAGAATAACAATCAA
1 TAACATCCCGAAAATATTAAAACAAGAGATAAGCACACATAACTGAGAATAACAATCAA
8293342 T
1 T
8293343 TATTTATCGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.18
Consensus pattern (59 bp):
TAACATCCCGAAAATATTAAAACAAGAGATAAGCACACATAACTGAGAATAACAATCAA
Found at i:8295449 original size:15 final size:15
Alignment explanation
Indices: 8295413--8295445 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
8295403 TTTTCCCTCA
8295413 TTTTCTTCCCTTTTC
1 TTTTCTTCCCTTTTC
*
8295428 TTTTCTT-CTTTTTC
1 TTTTCTTCCCTTTTC
8295442 TTTT
1 TTTT
8295446 TCTTTTCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTCCCTTTTC
Found at i:8298293 original size:42 final size:42
Alignment explanation
Indices: 8298247--8298329 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
8298237 TGGAGACTGG
*
8298247 CACTCCATGTAATTTGACAATTTCTGAAATATACAACCCTGT
1 CACTCCATGTAATTTGACAATTTCTGAAACATACAACCCTGT
8298289 CACTCCATGTAATTTGACAATTTCTGAAACATACAACCCTG
1 CACTCCATGTAATTTGACAATTTCTGAAACATACAACCCTG
8298330 CTAATCTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (42 bp):
CACTCCATGTAATTTGACAATTTCTGAAACATACAACCCTGT
Found at i:8303557 original size:187 final size:187
Alignment explanation
Indices: 8303237--8303612 Score: 707
Period size: 187 Copynumber: 2.0 Consensus size: 187
8303227 TTTTAAAGCT
8303237 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTTAAGCATACAAGA
1 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTTAAGCATACAAGA
8303302 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACAAGCATT
66 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACAAGCATT
8303367 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
131 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
*
8303424 TAGTAAGTTTATATAACGGGAAAGTTAACTTACTATTCATTTACATTTAAGTTAAGCATACAAGA
1 TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTTAAGCATACAAGA
* * *
8303489 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTAGACATGTATT
66 CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACAAGCATT
*
8303554 TCATATAAACATCAAGGAACATGTATGAGCTCAATAGTAATCAAATTTCCATATACA
131 TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
8303611 TA
1 TA
8303613 TACTTTCTTC
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 184 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (187 bp):
TAGTAAGTTTATATAACGGGAAAGTTAACGTACTATTCATTTACATTTAAGTTAAGCATACAAGA
CATACTCAAGCAAATTGGCCAAAAGCCCTAGCACATATCCTTATCAATCATGTTACACAAGCATT
TCATATAAACATCAAGGAACATGTATGAGCTCAATAATAATCAAATTTCCATATACA
Found at i:8304048 original size:24 final size:24
Alignment explanation
Indices: 8304015--8304098 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
8304005 CATAATCAAT
*
8304015 CGGGATGCTCTGAAGAGCTATTAA
1 CGGGAAGCTCTGAAGAGCTATTAA
* *
8304039 CGGGAAGCTC-GCAAGAACCATATAA
1 CGGGAAGCTCTG-AAGAGCTAT-TAA
*
8304064 CGGGAAGCTCATG-AGAGCTAATAA
1 CGGGAAGCTC-TGAAGAGCTATTAA
*
8304088 CGGGACGCTCT
1 CGGGAAGCTCT
8304099 TTCGAGCTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 2 0.04
24 28 0.57
25 18 0.37
27 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCTGAAGAGCTATTAA
Found at i:8304425 original size:21 final size:21
Alignment explanation
Indices: 8304401--8304442 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8304391 GAATTTAACA
* *
8304401 TCAATTTAATTCAATTCACAT
1 TCAATTCAATCCAATTCACAT
*
8304422 TCAATTCAATCCATTTCACAT
1 TCAATTCAATCCAATTCACAT
8304443 CTTAGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAATTCAATCCAATTCACAT
Found at i:8312951 original size:34 final size:34
Alignment explanation
Indices: 8312908--8312973 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
8312898 ACTATTTGCA
*
8312908 TATATATCTAAAAATCGTACTAATAAAAATCCGT
1 TATATATCTAAAAATCGTACGAATAAAAATCCGT
* *
8312942 TATATATCTAAATATTGTACGAATAAAAATCC
1 TATATATCTAAAAATCGTACGAATAAAAATCC
8312974 ATTTTATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (34 bp):
TATATATCTAAAAATCGTACGAATAAAAATCCGT
Found at i:8320429 original size:261 final size:261
Alignment explanation
Indices: 8319965--8320485 Score: 934
Period size: 261 Copynumber: 2.0 Consensus size: 261
8319955 TCAGTAGTTG
* *
8319965 GTGGATCCTAACTAGTGAGACAACTCTCCTCACCTTTTTATTTATGGACATAATGAATTCCCTCA
1 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
*
8320030 TGCATGCTTTCTAGTAATCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
66 TGCATGCTTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
* * * * ** *
8320095 TCCACATCTCAACAATTCAATAACGGGATCTTTACCAAATTCGTCTAGTGTCTATTTTTGATACC
131 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTAGTCTAATGTCTAGATTTGAAACC
8320160 AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
196 AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
8320225 A
261 A
8320226 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
1 GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
*
8320291 TGCATGCTTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGGAAATCGAACTTCCT
66 TGCATGCTTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
8320356 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTAGTCTAATGTCTAGATTTGAAACC
131 TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTAGTCTAATGTCTAGATTTGAAACC
*
8320421 AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTGCAACTAAGGAACAACTAAAATT
196 AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
8320486 GGAAAAATAA
Statistics
Matches: 248, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
261 248 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (261 bp):
GTGGATCCCAACTAGTGAGACAACTCTCCTCACCTTCTTATTTATGGACATAATGAATTCCCTCA
TGCATGCTTTCTAGTAAGCTTAGTTGGAGGCATCGAGTATAAGATATTTGAAAATCGAACTTCCT
TCCACATCTCAACAATTCAATAACAGAATCTTTACCAAATTAGTCTAATGTCTAGATTTGAAACC
AAATGTTAGTATTGAGTTACTGGTTTAATTGTATTTTAAGTTACAACTAAGGAACAACTAAAATT
A
Found at i:8322799 original size:22 final size:22
Alignment explanation
Indices: 8322771--8322815 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
8322761 ATATTAATAT
8322771 ATGTAAAAACAACTTTTCCGAA
1 ATGTAAAAACAACTTTTCCGAA
8322793 ATGTAAAAACAACTTTTCCGAA
1 ATGTAAAAACAACTTTTCCGAA
8322815 A
1 A
8322816 AATATTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.27
Consensus pattern (22 bp):
ATGTAAAAACAACTTTTCCGAA
Found at i:8322897 original size:14 final size:15
Alignment explanation
Indices: 8322875--8322951 Score: 50
Period size: 15 Copynumber: 4.9 Consensus size: 15
8322865 CAATCAAACA
8322875 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
8322889 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
8322904 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
8322924 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* * *
8322938 ACGGAAAATAATTT
1 CCAGAAAATCATTT
8322952 ACTGACAATC
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
14 16 0.33
15 19 0.39
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:8322916 original size:20 final size:20
Alignment explanation
Indices: 8322891--8322930 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8322881 AATATTTTCC
*
8322891 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
8322911 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
8322931 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:8322936 original size:34 final size:35
Alignment explanation
Indices: 8322879--8322945 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8322869 CAAACACCAG
*
8322879 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
8322914 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
8322946 TAATTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:8323335 original size:7 final size:7
Alignment explanation
Indices: 8323323--8323347 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8323313 TAAATTTATT
8323323 AAATTTA
1 AAATTTA
8323330 AAATTTA
1 AAATTTA
8323337 AAATTTA
1 AAATTTA
8323344 AAAT
1 AAAT
8323348 AAATTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:8329645 original size:16 final size:18
Alignment explanation
Indices: 8329619--8329652 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8329609 TAGAATCGAG
8329619 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
8329636 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
8329653 AATTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:8330078 original size:36 final size:37
Alignment explanation
Indices: 8330007--8330093 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 37
8329997 CGAGCCTCAA
*
8330007 CTGGATTATGCCATGTAGGCGAATCTGACAAACCTCC
1 CTGGATTATGCCATATAGGCGAATCTGACAAACCTCC
* *
8330044 CTGGATTATGCCATATAGGCG-ATCTGGCAGACCTCC
1 CTGGATTATGCCATATAGGCGAATCTGACAAACCTCC
*
8330080 CTGAATTATGCCAT
1 CTGGATTATGCCAT
8330094 GGCCATGGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 26 0.57
37 20 0.43
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (37 bp):
CTGGATTATGCCATATAGGCGAATCTGACAAACCTCC
Found at i:8330176 original size:22 final size:22
Alignment explanation
Indices: 8330148--8330196 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
8330138 CTGCAGAGTC
8330148 TCATACTACCCT-TAAAAGGCTT
1 TCATACTA-CCTGTAAAAGGCTT
*
8330170 TCATACTACCTGTAAAGGGCTT
1 TCATACTACCTGTAAAAGGCTT
8330192 TCATA
1 TCATA
8330197 ACTATGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (22 bp):
TCATACTACCTGTAAAAGGCTT
Found at i:8339582 original size:29 final size:29
Alignment explanation
Indices: 8339550--8339620 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
8339540 GGCTATCGAT
*
8339550 TATGAAAAAGGATGGTGACGACCATCAAC
1 TATGAAAAAGGATGGTGACGACCATCAAA
8339579 TATGAAAAAGGATGGTGACGACCATCAAA
1 TATGAAAAAGGATGGTGACGACCATCAAA
*
8339608 TATGAAAAGGGAT
1 TATGAAAAAGGAT
8339621 AGCTTCGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.44, C:0.13, G:0.25, T:0.18
Consensus pattern (29 bp):
TATGAAAAAGGATGGTGACGACCATCAAA
Found at i:8339763 original size:29 final size:29
Alignment explanation
Indices: 8339521--8339765 Score: 118
Period size: 29 Copynumber: 8.4 Consensus size: 29
8339511 AACCTCAGAT
* * * * *
8339521 TATGAAAAGGGATAGCTTCGGCTATCGAT
1 TATGAAAAGGGATGGTTTCGACCATCGAA
* **
8339550 TATGAAAAAGGATGGTGACGACCATC-AA
1 TATGAAAAGGGATGGTTTCGACCATCGAA
* ** *
8339578 CTATGAAAAAGGATGGTGACGACCATCAAA
1 -TATGAAAAGGGATGGTTTCGACCATCGAA
* * ** *
8339608 TATGAAAAGGGATAGCTTCGAATATTGAA
1 TATGAAAAGGGATGGTTTCGACCATCGAA
* * *** ** *
8339637 TGTGAAAATGGATAACTTCGAGTATCGAT
1 TATGAAAAGGGATGGTTTCGACCATCGAA
** *
8339666 TATGAAAAGGGATGGTGGCGACCATC-AGC
1 TATGAAAAGGGATGGTTTCGACCATCGA-A
* * * * ** *
8339695 TATGAAAAGAGACGATGAT-GGTCATCGAT
1 TATGAAAAGGGATGGT-TTCGACCATCGAA
8339724 TAATGAAAAGGGATGGTTTCGACCATCGAA
1 T-ATGAAAAGGGATGGTTTCGACCATCGAA
8339754 TATGAAAAGGGA
1 TATGAAAAGGGA
8339766 CAGTTACAAC
Statistics
Matches: 161, Mismatches: 48, Indels: 14
0.72 0.22 0.06
Matches are distributed among these distances:
28 2 0.01
29 136 0.84
30 23 0.14
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTTCGACCATCGAA
Found at i:8339777 original size:29 final size:30
Alignment explanation
Indices: 8339717--8339778 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
8339707 CGATGATGGT
* ** * *
8339717 CATCGATTAATGAAAAGGGATGGTTTCGAC
1 CATCGAATAATGAAAAGGGACAGTTACAAC
8339747 CATCGAAT-ATGAAAAGGGACAGTTACAAC
1 CATCGAATAATGAAAAGGGACAGTTACAAC
8339776 CAT
1 CAT
8339779 TGTTTAGCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (30 bp):
CATCGAATAATGAAAAGGGACAGTTACAAC
Found at i:8341526 original size:12 final size:12
Alignment explanation
Indices: 8341511--8341540 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8341501 TTAGGTTGTT
8341511 ACACGGCCTGGC
1 ACACGGCCTGGC
*
8341523 ACACAGCCTGGC
1 ACACGGCCTGGC
8341535 ACACGG
1 ACACGG
8341541 GCGTGTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTGGC
Found at i:8342775 original size:68 final size:67
Alignment explanation
Indices: 8342697--8342970 Score: 234
Period size: 68 Copynumber: 4.0 Consensus size: 67
8342687 CCTTCCAGGC
* * *
8342697 ACTTAGCTTTTCAAAGCTTTTGACCTTCAAAGGTTGCATACTTCTTAAAGTACTTAGCCCTCTCA
1 ACTTACCTTTTCAAAGCTTTTGACCTTCTAAGGTT-CATACTTCTTAAAGTACTTAACCCTCTCA
8342762 AGA
65 AGA
* * * *
8342765 ACTTACCTTTTCAAATCTTTTGGCCTT-TCAAGGTTGCATACTTCTTAAAGTA-TTCAGCCTCCT
1 ACTTACCTTTTCAAAGCTTTTGACCTTCT-AAGGTT-CATACTTCTTAAAGTACTTAACCCT-CT
*
8342828 CAAGC
63 CAAGA
* * * * * * *
8342833 ACTCT-CATTTTCAAAGATTTTGACCTTCTAACGTCTCAAAC-TCTTTAAAGTATTTAATCATCT
1 ACT-TACCTTTTCAAAGCTTTTGACCTTCTAAGGT-TCATACTTC-TTAAAGTACTTAACCCTCT
8342896 CAAGA
63 CAAGA
*** * * * *
8342901 ACTTTTGTTTTCAAAGCTCTTGACCTTCTAA-GCTCATGTACTTCTTAAAGTACTTAACCTTTTC
1 ACTTACCTTTTCAAAGCTTTTGACCTTCTAAGGTTCA--TACTTCTTAAAGTACTTAACCCTCTC
8342965 AAGA
64 AAGA
8342969 AC
1 AC
8342971 CCAAATTTTC
Statistics
Matches: 167, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
66 3 0.02
67 9 0.05
68 145 0.87
69 10 0.06
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.38
Consensus pattern (67 bp):
ACTTACCTTTTCAAAGCTTTTGACCTTCTAAGGTTCATACTTCTTAAAGTACTTAACCCTCTCAA
GA
Found at i:8342980 original size:68 final size:68
Alignment explanation
Indices: 8342908--8343036 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
8342898 AGAACTTTTG
* ** * * *
8342908 TTTTCAAAGCTCTTGACCTTCTAAGCTCATGTACTTCTTAAAGTACTTAACCTTTTCAAGAACCC
1 TTTTCAAAGCGCTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGAACCC
8342973 AAA
66 AAA
* ** *
8342976 TTTTCAAAGCGCTCAACCTTCCAAGGTTGTGTACTTCTTAAAATATTTAACCTTCTCAAGA
1 TTTTCAAAGCGCTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGA
8343037 CCTTGGCTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (68 bp):
TTTTCAAAGCGCTCAACCTTCCAAGCTCATGTACTTCTTAAAATACTTAACCTTCTCAAGAACCC
AAA
Found at i:8347536 original size:1 final size:1
Alignment explanation
Indices: 8347530--8347555 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8347520 AAGCCTTCTC
8347530 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
8347556 GTAATCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8351232 original size:27 final size:28
Alignment explanation
Indices: 8351201--8351253 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8351191 ACTGTGTTAA
*
8351201 TTAAT-TATTCGAAAGCTTTCAAAACGT
1 TTAATCTATGCGAAAGCTTTCAAAACGT
* *
8351228 TTAATCTATGCGGAAGCTTTTAAAAC
1 TTAATCTATGCGAAAGCTTTCAAAAC
8351254 AGATGGCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (28 bp):
TTAATCTATGCGAAAGCTTTCAAAACGT
Found at i:8355010 original size:9 final size:9
Alignment explanation
Indices: 8354992--8355031 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
8354982 TTTGGTTAAA
*
8354992 AATTAATCG
1 AATTACTCG
8355001 AATTACTCG
1 AATTACTCG
8355010 AATTAAC-CG
1 AATT-ACTCG
8355019 AATTACTCG
1 AATTACTCG
8355028 AATT
1 AATT
8355032 GAATCACTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 2 0.07
9 24 0.86
10 2 0.07
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (9 bp):
AATTACTCG
Found at i:8355015 original size:18 final size:18
Alignment explanation
Indices: 8354992--8355036 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
8354982 TTTGGTTAAA
8354992 AATTAATCGAATTACTCG
1 AATTAATCGAATTACTCG
*
8355010 AATTAACCGAATTACTCG
1 AATTAATCGAATTACTCG
8355028 AATTGAATC
1 AATT-AATC
8355037 ACTACATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (18 bp):
AATTAATCGAATTACTCG
Found at i:8355175 original size:18 final size:18
Alignment explanation
Indices: 8355152--8355195 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8355142 AATTTTTATG
*
8355152 ATTGGGTTGAGTTGGGTA
1 ATTGGGTTGAGTTGGATA
*
8355170 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGAGTTGGATA
*
8355188 CTTGGGTT
1 ATTGGGTT
8355196 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGAGTTGGATA
Found at i:8359731 original size:54 final size:54
Alignment explanation
Indices: 8359647--8359752 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
8359637 CATCGTTAAG
* *
8359647 TACGAACAGTAAAAAGAGATCGTGTGGCCACCGCTGAGTCTTCCCCCGCTTCGA
1 TACGAACAGTAAAAAGAGATCGTGTAGCCACCGCTGAGTCCTCCCCCGCTTCGA
*
8359701 TACGAACAGTAAAAAGGGATCGTGTAGCCACCGCTGAGTCCTCCCCCGCTTC
1 TACGAACAGTAAAAAGAGATCGTGTAGCCACCGCTGAGTCCTCCCCCGCTTC
8359753 AATCCTCCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (54 bp):
TACGAACAGTAAAAAGAGATCGTGTAGCCACCGCTGAGTCCTCCCCCGCTTCGA
Found at i:8362935 original size:23 final size:23
Alignment explanation
Indices: 8362893--8362941 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8362883 GTAATAAATG
*
8362893 TTTTATAGTATAAAATATGAATA
1 TTTTATAATATAAAATATGAATA
*
8362916 TTTTCATAATATAAAA-ATGAGTA
1 TTTT-ATAATATAAAATATGAATA
8362939 TTT
1 TTT
8362942 GTTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (23 bp):
TTTTATAATATAAAATATGAATA
Found at i:8364364 original size:16 final size:15
Alignment explanation
Indices: 8364339--8364372 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8364329 TTTATCCTTA
*
8364339 AAAAATTATTTTTCAG
1 AAAAACTATTTTT-AG
8364355 AAAAACTATTTTTAG
1 AAAAACTATTTTTAG
8364370 AAA
1 AAA
8364373 GTATTGCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
AAAAACTATTTTTAG
Found at i:8370467 original size:23 final size:23
Alignment explanation
Indices: 8370432--8370486 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
8370422 CATGAATTTC
8370432 AAATTCAAAAATATATATATATA
1 AAATTCAAAAATATATATATATA
**
8370455 AAATTCACGAATATATATATATA
1 AAATTCAAAAATATATATATATA
* *
8370478 TACTTCAAA
1 AAATTCAAA
8370487 TTCAATAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATTCAAAAATATATATATATA
Found at i:8373631 original size:26 final size:25
Alignment explanation
Indices: 8373602--8373651 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8373592 CAATTCAATA
8373602 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
8373628 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
8373652 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:8374541 original size:2 final size:2
Alignment explanation
Indices: 8374534--8374559 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8374524 GTTACTTTAC
8374534 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8374560 ATACAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8374579 original size:25 final size:22
Alignment explanation
Indices: 8374553--8374597 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
8374543 ATATATATAT
*
8374553 ATATATAATACAATAATAATAAA
1 ATATATAATAAAAT-ATAATAAA
8374576 ATATATAATAAAATATAATAAA
1 ATATATAATAAAATATAATAAA
8374598 TNNNNNNNNN
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
ATATATAATAAAATATAATAAA
Found at i:8374585 original size:12 final size:12
Alignment explanation
Indices: 8374539--8374592 Score: 65
Period size: 12 Copynumber: 4.4 Consensus size: 12
8374529 TTTACTATAT
*
8374539 ATATATATATATAT
1 ATATATA-ATA-AA
*
8374553 ATATATAATACA
1 ATATATAATAAA
8374565 ATA-ATAATAAA
1 ATATATAATAAA
8374576 ATATATAATAAA
1 ATATATAATAAA
8374588 ATATA
1 ATATA
8374593 ATAAATNNNN
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 10 0.28
12 16 0.44
13 3 0.08
14 7 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:8374593 original size:10 final size:10
Alignment explanation
Indices: 8374555--8374597 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
8374545 ATATATATAT
*
8374555 ATATAATACA
1 ATATAATAAA
8374565 ATAATAATAAAA
1 AT-ATAAT-AAA
8374577 TATATAATAAA
1 -ATATAATAAA
8374588 ATATAATAAA
1 ATATAATAAA
8374598 TNNNNNNNNN
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 12 0.41
11 8 0.28
12 7 0.24
13 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
ATATAATAAA
Found at i:8384196 original size:36 final size:36
Alignment explanation
Indices: 8384154--8384227 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
8384144 AAATACTACC
* *
8384154 ATAAATATAATAAATGTTTTGTTATATTAAAAATAA
1 ATAAATATAATAAATATTTTATTATATTAAAAATAA
* *
8384190 ATAAATATAATAAATATTTTATTGTATTAAATATAA
1 ATAAATATAATAAATATTTTATTATATTAAAAATAA
8384226 AT
1 AT
8384228 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (36 bp):
ATAAATATAATAAATATTTTATTATATTAAAAATAA
Found at i:8385990 original size:6 final size:6
Alignment explanation
Indices: 8385940--8385972 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
8385930 ACTTTTAGAC
8385940 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTT
8385973 GGAATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTAGT
Found at i:8386055 original size:18 final size:18
Alignment explanation
Indices: 8386015--8386058 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8386005 AATTTTTATG
**
8386015 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
8386033 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
8386051 CTTGGGTT
1 ATTGGGTT
8386059 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:8388125 original size:33 final size:33
Alignment explanation
Indices: 8388087--8388397 Score: 177
Period size: 33 Copynumber: 8.8 Consensus size: 33
8388077 CCCCCAAAGG
*
8388087 GGTTGCTAAGTGCTAATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
8388120 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
8388162 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
8388195 GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG--GT
8388236 GGATTGCTAAGTGCTGATTCCCC----CGA--GG-
1 GG-TTGCTAAGTGCTGATTCCCCGATTC-ATTGGT
*
8388264 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
8388297 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
8388339 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
** *
8388372 GGTTATTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
8388398 AACGGATAAC
Statistics
Matches: 218, Mismatches: 24, Indels: 71
0.70 0.08 0.23
Matches are distributed among these distances:
27 20 0.09
28 2 0.01
29 1 0.00
30 1 0.00
31 2 0.01
32 2 0.01
33 77 0.35
34 13 0.06
35 3 0.01
36 4 0.02
37 8 0.04
38 8 0.04
39 6 0.03
40 2 0.01
41 10 0.05
42 59 0.27
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:8388179 original size:42 final size:41
Alignment explanation
Indices: 8388120--8388256 Score: 173
Period size: 42 Copynumber: 3.5 Consensus size: 41
8388110 ATTCATTGGT
8388120 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
* *
8388162 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
*
8388195 GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
8388236 GGATTGCTAAGTGCTGATTCC
1 GG-TTGCTAAGTGCTGATTCC
8388257 CCCGAGGGGT
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
33 21 0.26
34 2 0.02
35 1 0.01
36 3 0.04
37 3 0.04
38 3 0.04
39 3 0.04
40 1 0.01
41 6 0.07
42 38 0.47
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
Found at i:8388205 original size:75 final size:75
Alignment explanation
Indices: 8388082--8388258 Score: 311
Period size: 75 Copynumber: 2.4 Consensus size: 75
8388072 TGATTCCCCC
* *
8388082 AAAGGGGTTGCTAAGTGCTAATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
8388147 CTTAAATGTG
66 CTTAAATGTG
*
8388157 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
8388222 CTTAAATGTG
66 CTTAAATGTG
8388232 -AAGGGGATTGCTAAGTGCTGATTCCCC
1 AAAGGGG-TTGCTAAGTGCTGATTCCCC
8388259 CGAGGGGTTG
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
74 6 0.06
75 92 0.94
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (75 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
CTTAAATGTG
Found at i:8388272 original size:27 final size:28
Alignment explanation
Indices: 8388233--8388285 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
8388223 TTAAATGTGA
8388233 AGGGGATTGCTAAGTGCTGATTCCCCCG
1 AGGGGATTGCTAAGTGCTGATTCCCCCG
8388261 AGGGG-TTGCTAAGTGCTGATTCCCC
1 AGGGGATTGCTAAGTGCTGATTCCCC
8388286 GAATCATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.26
Consensus pattern (28 bp):
AGGGGATTGCTAAGTGCTGATTCCCCCG
Found at i:8388279 original size:102 final size:102
Alignment explanation
Indices: 8388159--8388360 Score: 361
Period size: 102 Copynumber: 2.0 Consensus size: 102
8388149 TAAATGTGAA
* * *
8388159 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCT
8388224 TAAATGTG-AAGGGGATTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAAGGGG-TTGCTAAGTGCTGATTCCCCCG
8388261 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCT
8388326 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
8388361 GACTCATTGG
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 90 0.94
103 6 0.06
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCT
TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:8388358 original size:177 final size:178
Alignment explanation
Indices: 8388054--8388393 Score: 592
Period size: 177 Copynumber: 1.9 Consensus size: 178
8388044 ACTGAATATA
* * *
8388054 AAGGGGGTTGCTAAGTGTTGATTCCCCCAAAGGGGTTGCTAAGTGCTAATTCCCCGATTCATTGG
1 AAGGGGATTGCTAAGTGCTGATTCCCCCAAAGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGG
*
8388119 TGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 TGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
* *
8388184 GACTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTG
131 GACTCATTGGTGGTTACTAAGTGCTGAATCCACTGTATCTTAAATGTG
* *
8388232 AAGGGGATTGCTAAGTGCTGATTCCCCC-GAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
1 AAGGGGATTGCTAAGTGCTGATTCCCCCAAAGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGG
8388296 TGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 TGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
*
8388361 GACTCATTGGTGGTTATTAAGTGCTGAATCCAC
131 GACTCATTGGTGGTTACTAAGTGCTGAATCCAC
8388394 CGATAACGGA
Statistics
Matches: 153, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
177 127 0.83
178 26 0.17
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (178 bp):
AAGGGGATTGCTAAGTGCTGATTCCCCCAAAGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGG
TGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
GACTCATTGGTGGTTACTAAGTGCTGAATCCACTGTATCTTAAATGTG
Found at i:8391649 original size:123 final size:123
Alignment explanation
Indices: 8391424--8391651 Score: 302
Period size: 123 Copynumber: 1.9 Consensus size: 123
8391414 ATCGATACCA
* * * * *
8391424 TATCGATACTTGATAAAACCTTTAAAAGTCAGAATGTCAATTTCGTATTGATACCGAAAAAGGTA
1 TATCGATACTTGATAAAACCTTTAAAAGACAAAATGCCAATTTCGTATCGATACCAAAAAAGGTA
* *
8391489 TCGATAAAAGTGTAACACTACCGATACTTGAAGAAATTTATTGATACCAAACAAAATG
66 TCGATAAAAGTGTAACACTACCGATACTTCAAAAAATTTATTGATACCAAACAAAATG
*
8391547 TATCGATACTTGATAAATA-CTTTGAAAA-ACAAAATGCCATTTTCGTATCGATACCAAAAAAGG
1 TATCGATACTTGATAAA-ACCTTT-AAAAGACAAAATGCCAATTTCGTATCGATACCAAAAAAGG
* *
8391610 TATCGATAGAAGTGTAA-ATCTATCGATAC-TCAACAAAATTTA
64 TATCGATAAAAGTGTAACA-CTACCGATACTTCAA-AAAATTTA
8391652 ACGATACTTG
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
122 4 0.04
123 82 0.90
124 5 0.05
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.29
Consensus pattern (123 bp):
TATCGATACTTGATAAAACCTTTAAAAGACAAAATGCCAATTTCGTATCGATACCAAAAAAGGTA
TCGATAAAAGTGTAACACTACCGATACTTCAAAAAATTTATTGATACCAAACAAAATG
Found at i:8396839 original size:7 final size:7
Alignment explanation
Indices: 8396829--8396886 Score: 62
Period size: 7 Copynumber: 7.7 Consensus size: 7
8396819 TAAGAAATTT
8396829 AATAATA
1 AATAATA
8396836 AATAATA
1 AATAATA
*
8396843 AATATTCAA
1 AATAAT--A
8396852 AATAATA
1 AATAATA
8396859 AATAATA
1 AATAATA
8396866 AATAAATA
1 AAT-AATA
*
8396874 AATGATA
1 AATAATA
8396881 GAATAA
1 -AATAA
8396887 AAAGTGAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
7 26 0.60
8 11 0.26
9 6 0.14
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:8396839 original size:19 final size:21
Alignment explanation
Indices: 8396815--8396869 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
8396805 AAAAAAAACT
*
8396815 TAAATAAGAAAT-TT-AATAA
1 TAAATAATAAATATTAAATAA
8396834 TAAATAATAAATATTCAAAATAA
1 TAAATAATAAATATT--AAATAA
8396857 TAAATAATAAATA
1 TAAATAATAAATA
8396870 AATAAATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.35
20 2 0.06
23 18 0.58
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAATAATAAATATTAAATAA
Found at i:8400814 original size:13 final size:14
Alignment explanation
Indices: 8400784--8400821 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8400774 TTAACATAAA
8400784 ATTTTAATTATATT
1 ATTTTAATTATATT
*
8400798 ATTTTAA-TATTTT
1 ATTTTAATTATATT
*
8400811 ATTTTATTTAT
1 ATTTTAATTAT
8400822 TCCTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTAATTATATT
Found at i:8408724 original size:15 final size:16
Alignment explanation
Indices: 8408695--8408724 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8408685 CAAACATGCT
8408695 TTAACACATTATCAAA
1 TTAACACATTATCAAA
8408711 TTAACACA-TATCAA
1 TTAACACATTATCAA
8408725 CAAAGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:8409826 original size:25 final size:25
Alignment explanation
Indices: 8409802--8409929 Score: 95
Period size: 25 Copynumber: 5.2 Consensus size: 25
8409792 ATACATGTAT
*
8409802 GCTCATATGAGCTATGAATCGGTAT
1 GCTCATATGAGCTATGAATCGGTAA
* * *
8409827 GTTC-TCATGAGCTATAAATCAGTAA
1 GCTCAT-ATGAGCTATGAATCGGTAA
8409852 GCTCATATGAGCTGA-GAATCGGTAA
1 GCTCATATGAGCT-ATGAATCGGTAA
* * *
8409877 GATCTTATGAGC--TGAAATCGATAA
1 GCTCATATGAGCTATG-AATCGGTAA
* * *
8409901 GCTTATACGAGCTGA-GAATAGGTAA
1 GCTCATATGAGCT-ATGAATCGGTAA
8409926 GCTC
1 GCTC
8409930 TCACGAGTTG
Statistics
Matches: 78, Mismatches: 17, Indels: 16
0.70 0.15 0.14
Matches are distributed among these distances:
23 1 0.01
24 17 0.22
25 57 0.73
26 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (25 bp):
GCTCATATGAGCTATGAATCGGTAA
Found at i:8409901 original size:24 final size:24
Alignment explanation
Indices: 8409857--8409919 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
8409847 AGTAAGCTCA
*
8409857 TATGAGCTGAGAATCGGTAAGATCT
1 TATGAGCTGAGAATCGATAAG-TCT
8409882 TATGAGCTGA-AATCGATAAG-CT
1 TATGAGCTGAGAATCGATAAGTCT
8409904 TATACGAGCTGAGAAT
1 TAT--GAGCTGAGAAT
8409920 AGGTAAGCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 5 0.15
24 16 0.47
25 13 0.38
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (24 bp):
TATGAGCTGAGAATCGATAAGTCT
Found at i:8409914 original size:49 final size:49
Alignment explanation
Indices: 8409802--8409949 Score: 156
Period size: 49 Copynumber: 3.0 Consensus size: 49
8409792 ATACATGTAT
* * * *
8409802 GCTCATATGAGCT-ATGAATCGGTATGTTCTCATGAGCTATAAATC-AGTAA
1 GCTCATACGAGCTGA-GAATCGGTAAGATCTCATGAGCT-GAAATCGA-TAA
* *
8409852 GCTCATATGAGCTGAGAATCGGTAAGATCTTATGAGCTGAAATCGATAA
1 GCTCATACGAGCTGAGAATCGGTAAGATCTCATGAGCTGAAATCGATAA
* * * * *
8409901 GCTTATACGAGCTGAGAATAGGTAAGCTCTCACGAGTTGAAATCGATAA
1 GCTCATACGAGCTGAGAATCGGTAAGATCTCATGAGCTGAAATCGATAA
8409950 TCCCTAATGA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 50 0.59
50 34 0.40
51 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (49 bp):
GCTCATACGAGCTGAGAATCGGTAAGATCTCATGAGCTGAAATCGATAA
Found at i:8409935 original size:25 final size:25
Alignment explanation
Indices: 8409843--8409945 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
8409833 ATGAGCTATA
* * *
8409843 AATCAGTAAGCTCATATGAGCTGAG
1 AATCGGTAAGCTCTTACGAGCTGAG
* *
8409868 AATCGGTAAGATCTTATGAGCTGA-
1 AATCGGTAAGCTCTTACGAGCTGAG
*
8409892 AATCGATAAGCT-TATACGAGCTGAG
1 AATCGGTAAGCTCT-TACGAGCTGAG
* * *
8409917 AATAGGTAAGCTCTCACGAGTTGA-
1 AATCGGTAAGCTCTTACGAGCTGAG
8409941 AATCG
1 AATCG
8409946 ATAATCCCTA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 1 0.02
24 23 0.36
25 39 0.61
26 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (25 bp):
AATCGGTAAGCTCTTACGAGCTGAG
Found at i:8411746 original size:16 final size:16
Alignment explanation
Indices: 8411725--8411756 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8411715 TTTAGGAACT
8411725 AAAAGAACATTTGAAA
1 AAAAGAACATTTGAAA
8411741 AAAAGAACATTTGAAA
1 AAAAGAACATTTGAAA
8411757 TCACTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAAGAACATTTGAAA
Found at i:8414608 original size:46 final size:46
Alignment explanation
Indices: 8414550--8414640 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
8414540 TTAAATTTTC
8414550 TTTATTTTGTTTTGTTATTGATATAAATTAAATATGACCTCTGAAT
1 TTTATTTTGTTTTGTTATTGATATAAATTAAATATGACCTCTGAAT
* *
8414596 TTTATTTTGTTTTGTTATTGATATAGATTAAATATGACTTCTGAA
1 TTTATTTTGTTTTGTTATTGATATAAATTAAATATGACCTCTGAA
8414641 CATAACCGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (46 bp):
TTTATTTTGTTTTGTTATTGATATAAATTAAATATGACCTCTGAAT
Found at i:8419557 original size:41 final size:41
Alignment explanation
Indices: 8419469--8419574 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
8419459 TTCAATCTAT
*
8419469 TCTACTGCAACTTTAGGGAGATAA-GATTGGTTTAAATTGC
1 TCTACTGCAACTTTAGGGAGATAAGGATTGGTATAAATTGC
* * * *
8419509 TCCACTGCAACTTCAGGGAGATAAGGTTTGGTAT-GATCTGC
1 TCTACTGCAACTTTAGGGAGATAAGGATTGGTATAAAT-TGC
*
8419550 TCTACTGCAACTTTAGCGAGATAAG
1 TCTACTGCAACTTTAGGGAGATAAG
8419575 ATCGGTAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 24 0.43
41 32 0.57
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
TCTACTGCAACTTTAGGGAGATAAGGATTGGTATAAATTGC
Found at i:8419791 original size:45 final size:44
Alignment explanation
Indices: 8419721--8419848 Score: 148
Period size: 44 Copynumber: 2.9 Consensus size: 44
8419711 TGTTTATTGA
* * * * *
8419721 CTTCAATCTACTCCATTGTAACTTCAGGGAGATAAGATTTGATAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAG-CAG
* * * * *
8419766 CTTTAGTCTACTCCACTGCAACTTCAGGGAGGTAAGACTAGCGG
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGCAG
*
8419810 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
8419849 CGCCATGATG
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 34 0.50
45 34 0.50
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGCAG
Found at i:8432775 original size:15 final size:15
Alignment explanation
Indices: 8432755--8432784 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8432745 TTTTATTGTG
8432755 AAATATTGGTAATAA
1 AAATATTGGTAATAA
8432770 AAATATTGGTAATAA
1 AAATATTGGTAATAA
8432785 TGAGTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
AAATATTGGTAATAA
Found at i:8433543 original size:48 final size:48
Alignment explanation
Indices: 8433490--8434309 Score: 1640
Period size: 48 Copynumber: 17.1 Consensus size: 48
8433480 GGAATGGTAA
8433490 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433538 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433586 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433634 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433682 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433730 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433778 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433826 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433874 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433922 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8433970 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8434018 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8434066 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8434114 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8434162 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8434210 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8434258 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
1 GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
8434306 GTAA
1 GTAA
8434310 TGTATCTTAT
Statistics
Matches: 772, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 772 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (48 bp):
GTAAGTTAATGGAAATGTTCATGATCTTATAAAAAGGTTGATGAATAT
Found at i:8453369 original size:63 final size:62
Alignment explanation
Indices: 8453294--8453440 Score: 161
Period size: 63 Copynumber: 2.4 Consensus size: 62
8453284 AAATTCTTTC
* * *
8453294 ATACAGCTTAGACACACGCCCGTCTCTCTGGCCCGTGTGACTTTAATTCCAAAAAAGTGAATT
1 ATACAGCCTAGACACACGCCCGTCTCTCTGGCCCATGTGACTCT-ATTCCAAAAAAGTGAATT
* * * * * * *
8453357 ATACAGCCTAGACACAAGCCTGTGTCTCTGTCCTATGTGACTCTATTCCAAAACAGTGAGTT
1 ATACAGCCTAGACACACGCCCGTCTCTCTGGCCCATGTGACTCTATTCCAAAAAAGTGAATT
* * *
8453419 ACACGGCCT-GACACACGACCGT
1 ATACAGCCTAGACACACGCCCGT
8453441 GTGGCTTATA
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
61 10 0.14
62 23 0.33
63 36 0.52
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (62 bp):
ATACAGCCTAGACACACGCCCGTCTCTCTGGCCCATGTGACTCTATTCCAAAAAAGTGAATT
Found at i:8454502 original size:16 final size:16
Alignment explanation
Indices: 8454481--8454530 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
8454471 AATGAAAAGG
* *
8454481 TTGAAAATGATATCGA
1 TTGAAAAGGATATCAA
8454497 TTGAAAAGGATATCAA
1 TTGAAAAGGATATCAA
*
8454513 ATGAAAAGGATAT-AA
1 TTGAAAAGGATATCAA
8454528 TTG
1 TTG
8454531 TAATGGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (16 bp):
TTGAAAAGGATATCAA
Found at i:8460311 original size:15 final size:15
Alignment explanation
Indices: 8460273--8460304 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8460263 ATTTTAATGA
8460273 AAAGAAAATAAAAAT
1 AAAGAAAATAAAAAT
8460288 AAAGAAAAT-AAAAT
1 AAAGAAAATAAAAAT
8460302 AAA
1 AAA
8460305 TGGAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAGAAAATAAAAAT
Found at i:8462942 original size:28 final size:28
Alignment explanation
Indices: 8462902--8462957 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
8462892 ATATTGACAA
* *
8462902 TGTTGCTCTGACAACAAATGTGACATCC
1 TGTTACTCCGACAACAAATGTGACATCC
*
8462930 TGTTACTCCGACAACGAATGTGACATCC
1 TGTTACTCCGACAACAAATGTGACATCC
8462958 CATTACTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (28 bp):
TGTTACTCCGACAACAAATGTGACATCC
Found at i:8462963 original size:28 final size:28
Alignment explanation
Indices: 8462911--8462965 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
8462901 ATGTTGCTCT
**
8462911 GACAACAAATGTGACATCCTGTTACTCC
1 GACAACAAATGTGACATCCCATTACTCC
*
8462939 GACAACGAATGTGACATCCCATTACTC
1 GACAACAAATGTGACATCCCATTACTC
8462966 GAACTCGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.24
Consensus pattern (28 bp):
GACAACAAATGTGACATCCCATTACTCC
Found at i:8468985 original size:30 final size:30
Alignment explanation
Indices: 8468951--8469021 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
8468941 ATATATATTG
*
8468951 AAAATATTCTAATAATCTCCCCCTATTTTC
1 AAAATATTCTAACAATCTCCCCCTATTTTC
8468981 AAAATATTCTAACAATCTCCCCCTATTTTC
1 AAAATATTCTAACAATCTCCCCCTATTTTC
8469011 AAAATATTCTA
1 AAAATATTCTA
8469022 GATTTTGATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATTCTAACAATCTCCCCCTATTTTC
Found at i:8470609 original size:41 final size:41
Alignment explanation
Indices: 8470564--8470683 Score: 170
Period size: 41 Copynumber: 2.9 Consensus size: 41
8470554 AACGATTTAA
*
8470564 GCCTTAAGCCTAGCAGGCTTCATGCCGGTGTAATGAATTAG
1 GCCTTGAGCCTAGCAGGCTTCATGCCGGTGTAATGAATTAG
* *
8470605 GCCTTGAGCCTAGCAGGCTTCGTGTCGGTGT-ATGAAATTAG
1 GCCTTGAGCCTAGCAGGCTTCATGCCGGTGTAATG-AATTAG
* * *
8470646 GCCTTGAGCCTAGCAGGCTTCCTGCCAGTGTAGTGAAT
1 GCCTTGAGCCTAGCAGGCTTCATGCCGGTGTAATGAAT
8470684 CAAATAACCG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.93
42 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.28
Consensus pattern (41 bp):
GCCTTGAGCCTAGCAGGCTTCATGCCGGTGTAATGAATTAG
Found at i:8471580 original size:30 final size:30
Alignment explanation
Indices: 8471539--8471613 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
8471529 TTTGGAGCAC
*
8471539 ACAGCCGTGTGACACACACGGCCTGGCCAT
1 ACAGTCGTGTGACACACACGGCCTGGCCAT
8471569 ACAGTCGTGTGACACACACGGCCTGGCCAT
1 ACAGTCGTGTGACACACACGGCCTGGCCAT
*
8471599 ACAGTTGTGTGACAC
1 ACAGTCGTGTGACAC
8471614 TTTTTATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.24, C:0.32, G:0.27, T:0.17
Consensus pattern (30 bp):
ACAGTCGTGTGACACACACGGCCTGGCCAT
Found at i:8477826 original size:11 final size:12
Alignment explanation
Indices: 8477804--8477839 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
8477794 TAAATTCCAA
8477804 TACATATTGAAT
1 TACATATTGAAT
8477816 TACAT-TTGAAT
1 TACATATTGAAT
8477827 T-CATATTGAAT
1 TACATATTGAAT
8477838 TA
1 TA
8477840 TACTTATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 14 0.64
12 5 0.23
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TACATATTGAAT
Found at i:8478679 original size:30 final size:30
Alignment explanation
Indices: 8478645--8478774 Score: 156
Period size: 30 Copynumber: 4.3 Consensus size: 30
8478635 TAACCCTGGG
*
8478645 GTTGGTCAGCAACTCATCAGCTATCCCGGA
1 GTTGGTCAGCAACACATCAGCTATCCCGGA
* * * *
8478675 GTTGGTCAGCAACACATCAACAATCCTGGT
1 GTTGGTCAGCAACACATCAGCTATCCCGGA
*
8478705 GTTGGTCAGCAACTA-ATTAGCTATCCCGGA
1 GTTGGTCAGCAAC-ACATCAGCTATCCCGGA
* *
8478735 GTTGGTCAGCAACACATCAGC-AACCCTGGT
1 GTTGGTCAGCAACACATCAGCTATCCC-GGA
8478765 GTTGGTCAGC
1 GTTGGTCAGC
8478775 TCATGGGTGT
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
29 5 0.06
30 78 0.93
31 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (30 bp):
GTTGGTCAGCAACACATCAGCTATCCCGGA
Found at i:8478713 original size:60 final size:60
Alignment explanation
Indices: 8478626--8478774 Score: 235
Period size: 60 Copynumber: 2.5 Consensus size: 60
8478616 CTCATAAGCC
* * * *
8478626 ACACCTCAATAACCCTGGGGTTGGTCAGCAACTCATCAGCTATCCCGGAGTTGGTCAGCA
1 ACACATCAACAACCCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCA
* *
8478686 ACACATCAACAATCCTGGTGTTGGTCAGCAACTAATTAGCTATCCCGGAGTTGGTCAGCA
1 ACACATCAACAACCCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCA
*
8478746 ACACATCAGCAACCCTGGTGTTGGTCAGC
1 ACACATCAACAACCCTGGTGTTGGTCAGC
8478775 TCATGGGTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 81 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (60 bp):
ACACATCAACAACCCTGGTGTTGGTCAGCAACTAATCAGCTATCCCGGAGTTGGTCAGCA
Found at i:8485260 original size:15 final size:15
Alignment explanation
Indices: 8485240--8485274 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8485230 CAAAACCAAG
8485240 ATTTTTACAACATTC
1 ATTTTTACAACATTC
* *
8485255 ATTTTTATAATATTC
1 ATTTTTACAACATTC
8485270 ATTTT
1 ATTTT
8485275 CTTTAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:8501864 original size:10 final size:10
Alignment explanation
Indices: 8501837--8501870 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8501827 CTTTGATTTA
*
8501837 TTATTTTATT
1 TTATTTTTTT
*
8501847 TTAGTTTTTT
1 TTATTTTTTT
8501857 TTATTTTTTT
1 TTATTTTTTT
8501867 TTAT
1 TTAT
8501871 CTGACTTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (10 bp):
TTATTTTTTT
Found at i:8511545 original size:16 final size:17
Alignment explanation
Indices: 8511524--8511555 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8511514 AAATATGCAA
8511524 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
8511540 TCACATAACTTCATAT
1 TCACATAACTTCATAT
8511556 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:8511782 original size:43 final size:43
Alignment explanation
Indices: 8511716--8511886 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
8511706 GACTCGTACA
* * *
8511716 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGAAAACACATATCG
* * * * *
8511759 ATGCCACTGTCCTAGACAGGGTCTTACA-CAAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACATGAAAACACATATCG
* *
8511800 ATGCCAATGTCCCAGACATGGTCTTACA-CATAAACACA-AGTCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGA-AAACACATA-TCG
8511843 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAAACACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGAAAACACATATCG
8511886 A
1 A
8511887 AATCCTATGT
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
41 30 0.28
42 15 0.14
43 60 0.56
44 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGAAAACACATATCG
Found at i:8511860 original size:84 final size:84
Alignment explanation
Indices: 8511716--8511870 Score: 215
Period size: 84 Copynumber: 1.8 Consensus size: 84
8511706 GACTCGTACA
* ** * *
8511716 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAACACATATCGATGCCACTGTCCCAGACAGGGT
8511781 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
* *
8511800 ATGCCAATGTCCCAGACATGGTCTTACACATAAACACA-AGTCGATGCCAAC-GTCCCAGACATG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAACACATA-TCGATGCC-ACTGTCCCAGACAGG
8511863 GTCTTACA
64 GTCTTACA
8511871 TGAAAACACA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 1 0.02
84 59 0.95
85 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAAACACATATCGATGCCACTGTCCCAGACAGGGT
CTTACACAAATCAAATACG
Found at i:8514860 original size:13 final size:13
Alignment explanation
Indices: 8514842--8514866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8514832 ACATGAAATC
8514842 TATAAAATTTTCT
1 TATAAAATTTTCT
8514855 TATAAAATTTTC
1 TATAAAATTTTC
8514867 ATACGTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAAAATTTTCT
Found at i:8515238 original size:19 final size:19
Alignment explanation
Indices: 8515214--8515250 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8515204 GTAATAAATG
8515214 TAAAATAAAATTAAATAAC
1 TAAAATAAAATTAAATAAC
* *
8515233 TAAAATTAAATTAGATAA
1 TAAAATAAAATTAAATAA
8515251 TCAAATATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
TAAAATAAAATTAAATAAC
Found at i:8516306 original size:21 final size:22
Alignment explanation
Indices: 8516280--8516324 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
8516270 AAAATAATTT
8516280 TTAAAAAATATAAA-TTAAAAA
1 TTAAAAAATATAAAGTTAAAAA
* *
8516301 TTAAAAAATCTAAAGTTTAAAA
1 TTAAAAAATATAAAGTTAAAAA
8516323 TT
1 TT
8516325 CATAAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAAATATAAAGTTAAAAA
Found at i:8516414 original size:76 final size:77
Alignment explanation
Indices: 8516314--8516466 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 77
8516304 AAAAATCTAA
8516314 AGTTTAAAATTCATAAGAATTCATGTAATTGAATTTTTGTAATTTTTCAACTTTCTCTCTCCCTA
1 AGTTTAAAATTCATAAGAATTCATGTAATTGAATTTTTGTAATTTTTCAACTTTCTCTCTCCCTA
8516379 AGCACTAATTTT
66 AGCACTAATTTT
8516391 AGTTTAAAA-TCATAAGAATTCATGTAATTGAATTTTTGTAATTTTTCAACTTTCTCTCTCCCTA
1 AGTTTAAAATTCATAAGAATTCATGTAATTGAATTTTTGTAATTTTTCAACTTTCTCTCTCCCTA
8516455 AGCACTAATTTT
66 AGCACTAATTTT
8516467 CTCATTCACT
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 67 0.88
77 9 0.12
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (77 bp):
AGTTTAAAATTCATAAGAATTCATGTAATTGAATTTTTGTAATTTTTCAACTTTCTCTCTCCCTA
AGCACTAATTTT
Found at i:8517286 original size:22 final size:21
Alignment explanation
Indices: 8517244--8517286 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8517234 AAATGACAAC
* * *
8517244 AAAACAGTAAAAAATAGCAGT
1 AAAACAATAAAAAACAACAGT
8517265 AAAACAATAACAAAACAACAGT
1 AAAACAATAA-AAAACAACAGT
8517287 TTTTTTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.65, C:0.14, G:0.09, T:0.12
Consensus pattern (21 bp):
AAAACAATAAAAAACAACAGT
Found at i:8519170 original size:12 final size:12
Alignment explanation
Indices: 8519153--8519183 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
8519143 ATTTAGCCTT
8519153 AAGTGAATATTG
1 AAGTGAATATTG
8519165 AAGTGAATATTG
1 AAGTGAATATTG
8519177 AAGTGAA
1 AAGTGAA
8519184 ATAAATTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (12 bp):
AAGTGAATATTG
Found at i:8532351 original size:18 final size:20
Alignment explanation
Indices: 8532314--8532352 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8532304 TGGCTTGGTA
*
8532314 ATTAATTATTTTTTTGAATT
1 ATTAATTATTTTTATGAATT
8532334 ATTAATT-TTTTTAT-AATT
1 ATTAATTATTTTTATGAATT
8532352 A
1 A
8532353 AATAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTAATTATTTTTATGAATT
Found at i:8534566 original size:4 final size:4
Alignment explanation
Indices: 8534557--8534582 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8534547 GGAAAAAAAT
8534557 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
8534583 AAGATAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:8536122 original size:15 final size:15
Alignment explanation
Indices: 8536101--8536190 Score: 126
Period size: 15 Copynumber: 6.0 Consensus size: 15
8536091 AGGGCCCCTC
*
8536101 TGCTGAAGGATCCGA
1 TGCTGAAGGACCCGA
*
8536116 GGCTGAAGGACCCGA
1 TGCTGAAGGACCCGA
*
8536131 TACTGAAGGACCCGA
1 TGCTGAAGGACCCGA
8536146 TGCTGAAGGACCCGA
1 TGCTGAAGGACCCGA
* *
8536161 TGCCGATGGACCCGA
1 TGCTGAAGGACCCGA
*
8536176 TGTTGAAGGACCCGA
1 TGCTGAAGGACCCGA
8536191 AGGTGATGAC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 65 1.00
ACGTcount: A:0.27, C:0.26, G:0.33, T:0.14
Consensus pattern (15 bp):
TGCTGAAGGACCCGA
Done.